☰ Navigation Tabs
Crystal structure of the LSm domain of human EDC3 (enhancer of decapping 3)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.1 40 MM NA-PROPIONATE, 20 MM NA-CACODYLATE, 40 MM BIS-TRIS-PROPANE, PH=4.1, 32% PEG1500
Crystal Properties Matthews coefficient Solvent content 1.77 30.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.3 α = 90 b = 37.3 β = 90 c = 79.209 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARRESEARCH MIRRORS 2007-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 MPG/DESY, HAMBURG BW6
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.31 18.7 98.6 0.05 15.5 12.9 15783
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.31 1.33 99.8 0.28 4.7 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT NONE 1.31 18.65 14787 758 97.3 0.198 0.196 0.1995 0.231 RANDOM 18.3
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.54 -0.27 -0.54 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.049 r_dihedral_angle_4_deg 14.732 r_dihedral_angle_3_deg 12.702 r_scangle_it 9.185 r_scbond_it 7.773 r_mcangle_it 6.721 r_mcbond_it 6.276 r_dihedral_angle_1_deg 6.084 r_angle_refined_deg 1.752 r_angle_other_deg 1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.049 r_dihedral_angle_4_deg 14.732 r_dihedral_angle_3_deg 12.702 r_scangle_it 9.185 r_scbond_it 7.773 r_mcangle_it 6.721 r_mcbond_it 6.276 r_dihedral_angle_1_deg 6.084 r_angle_refined_deg 1.752 r_angle_other_deg 1.02 r_symmetry_vdw_refined 0.243 r_symmetry_vdw_other 0.212 r_nbd_other 0.209 r_nbd_refined 0.205 r_xyhbond_nbd_refined 0.186 r_symmetry_hbond_refined 0.177 r_nbtor_refined 0.167 r_chiral_restr 0.114 r_nbtor_other 0.087 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 541 Nucleic Acid Atoms Solvent Atoms 54 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling autoSHARP phasing